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Aliases for CLEC4F Gene

Aliases for CLEC4F Gene

  • C-Type Lectin Domain Family 4 Member F 2 3 5
  • C-Type (Calcium Dependent, Carbohydrate-Recognition Domain) Lectin, Superfamily Member 13 2 3
  • C-Type Lectin Domain Family 4, Member F 2 3
  • CLECSF13 3 4
  • C-Type Lectin Superfamily Member 13 4
  • C-Type Lectin 13 4
  • KCLR 3

External Ids for CLEC4F Gene

Previous HGNC Symbols for CLEC4F Gene

  • CLECSF13

Previous GeneCards Identifiers for CLEC4F Gene

  • GC02M070948
  • GC02M070889
  • GC02M071035

Summaries for CLEC4F Gene

GeneCards Summary for CLEC4F Gene

CLEC4F (C-Type Lectin Domain Family 4 Member F) is a Protein Coding gene. GO annotations related to this gene include carbohydrate binding and galactose binding. An important paralog of this gene is CLEC6A.

UniProtKB/Swiss-Prot for CLEC4F Gene

  • Receptor with an affinity for galactose and fucose. Could be involved in endocytosis (By similarity).

No data available for Entrez Gene Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CLEC4F Gene

Genomics for CLEC4F Gene

Regulatory Elements for CLEC4F Gene

Enhancers for CLEC4F Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around CLEC4F on UCSC Golden Path with GeneCards custom track

Genomic Location for CLEC4F Gene

Chromosome:
2
Start:
70,808,643 bp from pter
End:
70,823,764 bp from pter
Size:
15,122 bases
Orientation:
Minus strand

Genomic View for CLEC4F Gene

Genes around CLEC4F on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CLEC4F Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CLEC4F Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CLEC4F Gene

Proteins for CLEC4F Gene

  • Protein details for CLEC4F Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8N1N0-CLC4F_HUMAN
    Recommended name:
    C-type lectin domain family 4 member F
    Protein Accession:
    Q8N1N0
    Secondary Accessions:
    • A4QPA5

    Protein attributes for CLEC4F Gene

    Size:
    589 amino acids
    Molecular mass:
    65519 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAC04786.1; Type=Erroneous termination; Positions=540; Note=Translated as Trp.; Evidence={ECO:0000305};

    Alternative splice isoforms for CLEC4F Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CLEC4F Gene

Proteomics data for CLEC4F Gene at MOPED

Post-translational modifications for CLEC4F Gene

  • Glycosylation at Asn 79, Asn 113, Asn 207, Asn 230, Asn 244, Asn 312, Asn 385, and Asn 399
  • Modification sites at PhosphoSitePlus

Other Protein References for CLEC4F Gene

Antibody Products

  • R&D Systems Antibodies for CLEC4F (CLEC4F/CLECSF13)

No data available for DME Specific Peptides for CLEC4F Gene

Domains & Families for CLEC4F Gene

Gene Families for CLEC4F Gene

Protein Domains for CLEC4F Gene

Suggested Antigen Peptide Sequences for CLEC4F Gene

Graphical View of Domain Structure for InterPro Entry

Q8N1N0

UniProtKB/Swiss-Prot:

CLC4F_HUMAN :
  • Contains 1 C-type lectin domain.
Domain:
  • Contains 1 C-type lectin domain.
genes like me logo Genes that share domains with CLEC4F: view

Function for CLEC4F Gene

Molecular function for CLEC4F Gene

UniProtKB/Swiss-Prot Function:
Receptor with an affinity for galactose and fucose. Could be involved in endocytosis (By similarity).
genes like me logo Genes that share phenotypes with CLEC4F: view

Animal Models for CLEC4F Gene

MGI Knock Outs for CLEC4F:

Animal Model Products

  • Taconic Biosciences Mouse Models for CLEC4F

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , miRNA , Transcription Factor Targets and HOMER Transcription for CLEC4F Gene

Localization for CLEC4F Gene

Subcellular locations from UniProtKB/Swiss-Prot for CLEC4F Gene

Membrane; Single-pass type II membrane protein.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for CLEC4F Gene COMPARTMENTS Subcellular localization image for CLEC4F gene
Compartment Confidence
plasma membrane 3
cytosol 1
extracellular 1
mitochondrion 1
nucleus 1

No data available for Gene Ontology (GO) - Cellular Components for CLEC4F Gene

Pathways & Interactions for CLEC4F Gene

SuperPathways for CLEC4F Gene

No Data Available

Interacting Proteins for CLEC4F Gene

STRING Interaction Network Preview (showing 1 interactants - click image to see details)
http://string-db.org/version_10/api/image/networkList?limit=0&targetmode=proteins&caller_identity=gene_cards&network_flavor=evidence&identifiers=9606.ENSP00000272367%0d%0a9606.ENSP00000244769%0d%0a
Selected Interacting proteins: Q8N1N0-CLC4F_HUMAN ENSP00000272367 for CLEC4F Gene via MINT STRING I2D

Gene Ontology (GO) - Biological Process for CLEC4F Gene

None

No data available for Pathways by source and SIGNOR curated interactions for CLEC4F Gene

Drugs & Compounds for CLEC4F Gene

No Compound Related Data Available

Transcripts for CLEC4F Gene

mRNA/cDNA for CLEC4F Gene

(13) REFSEQ mRNAs :
(4) Additional mRNA sequences :
(8) Selected AceView cDNA sequences:
(2) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for CLEC4F Gene

C-type lectin domain family 4, member F:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for CLEC4F Gene

No ASD Table

Relevant External Links for CLEC4F Gene

GeneLoc Exon Structure for
CLEC4F
ECgene alternative splicing isoforms for
CLEC4F

Expression for CLEC4F Gene

mRNA expression in normal human tissues for CLEC4F Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for CLEC4F Gene

This gene is overexpressed in Spleen (x5.9) and Uterus (x4.7).

Protein differential expression in normal tissues from HIPED for CLEC4F Gene

This gene is overexpressed in Liver (67.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for CLEC4F Gene



SOURCE GeneReport for Unigene cluster for CLEC4F Gene Hs.681239

genes like me logo Genes that share expression patterns with CLEC4F: view

Protein tissue co-expression partners for CLEC4F Gene

- Elite partner

Primer Products

No data available for mRNA Expression by UniProt/SwissProt for CLEC4F Gene

Orthologs for CLEC4F Gene

This gene was present in the common ancestor of chordates.

Orthologs for CLEC4F Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia CLEC4F 35
  • 76.53 (n)
  • 61.71 (a)
CLEC4F 36
  • 57 (a)
OneToOne
dog
(Canis familiaris)
Mammalia CLEC4F 35
  • 76.47 (n)
  • 62.43 (a)
CLEC4F 36
  • 56 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Clec4f 35
  • 69.33 (n)
  • 55.21 (a)
Clec4f 16
Clec4f 36
  • 49 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia CLEC4F 35
  • 97.27 (n)
  • 94.9 (a)
CLEC4F 36
  • 96 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Clec4f 35
  • 67.62 (n)
  • 53.66 (a)
oppossum
(Monodelphis domestica)
Mammalia CLEC4F 36
  • 38 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 36
  • 39 (a)
ManyToMany
-- 36
  • 49 (a)
ManyToMany
lizard
(Anolis carolinensis)
Reptilia -- 36
  • 19 (a)
ManyToMany
-- 36
  • 29 (a)
ManyToMany
-- 36
  • 24 (a)
ManyToMany
-- 36
  • 30 (a)
ManyToMany
zebrafish
(Danio rerio)
Actinopterygii CD207 36
  • 17 (a)
OneToMany
Species with no ortholog for CLEC4F:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for CLEC4F Gene

ENSEMBL:
Gene Tree for CLEC4F (if available)
TreeFam:
Gene Tree for CLEC4F (if available)

Paralogs for CLEC4F Gene

(1) SIMAP similar genes for CLEC4F Gene using alignment to 3 proteins:

Pseudogenes.org Pseudogenes for CLEC4F Gene

genes like me logo Genes that share paralogs with CLEC4F: view

Variants for CLEC4F Gene

Sequence variations from dbSNP and Humsavar for CLEC4F Gene

SNP ID Clin Chr 02 pos Sequence Context AA Info Type
rs2075221 - 70,817,079(+) GCTCT(C/G/T)GCATT nc-transcript-variant, reference, missense
rs722896 - 70,816,329(-) TGGCC(A/G)TCTGG nc-transcript-variant, reference, missense
rs2287101 - 70,809,350(+) TATAC(C/T)TTCTG intron-variant, nc-transcript-variant, downstream-variant-500B, reference, missense
rs1861449 -- 70,817,914(+) ACCCC(A/G)CAGCC intron-variant
rs2902581 -- 70,821,986(+) actcc(C/T)ggctt intron-variant, upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for CLEC4F Gene

Variant ID Type Subtype PubMed ID
nsv458130 CNV Loss 19166990

Variation tolerance for CLEC4F Gene

Residual Variation Intolerance Score: 98.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 11.56; 93.02% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for CLEC4F Gene

Human Gene Mutation Database (HGMD)
CLEC4F

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CLEC4F Gene

Disorders for CLEC4F Gene

Relevant External Links for CLEC4F

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
CLEC4F

No disorders were found for CLEC4F Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for CLEC4F Gene

Publications for CLEC4F Gene

  1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 67
  2. Normalization and subtraction: two approaches to facilitate gene discovery. (PMID: 8889548) Bonaldo M.F. … Soares M.B. (Genome Res. 1996) 2 3
  3. Structure of the gene for a carbohydrate-binding receptor unique to rat kupffer cells. (PMID: 1846367) Hoyle G.W. … Hill R.L. (J. Biol. Chem. 1991) 2 3
  4. Genome-wide association study identifies three novel susceptibility loci for severe Acne vulgaris. (PMID: 24927181) Navarini A.A. … Barker J.N. (Nat Commun 2014) 3
  5. A protein-protein interaction network for human inherited ataxias and disorders of Purkinje cell degeneration. (PMID: 16713569) Lim J. … Zoghbi H.Y. (Cell 2006) 3

Products for CLEC4F Gene

Sources for CLEC4F Gene

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